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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ), 'gf_id' => 'HOM05D001094', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001094' ), 'data_identifier' => 'HOM05D001094', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001094', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '559', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p02490' => 'bna', 'A01p04190' => 'bna', 'A03p64140' => 'bna', 'A05p21610' => 'bna', 'A08p06380' => 'bna', 'A08p22130' => 'bna', 'A10p07580' => 'bna', 'Aa31LG6G13140' => 'aar', 'Aa31LG8G15290' => 'aar', 'Aa31LG9G14190' => 'aar', 'Aa31sc494G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.890' => 'aag', 'Actinidia03461' => 'ach', 'Actinidia06594' => 'ach', 'Actinidia06902' => 'ach', 'Actinidia15236' => 'ach', 'Actinidia16327' => 'ach', 'Actinidia19232' => 'ach', 'Actinidia20051' => 'ach', 'Actinidia26113' => 'ach', 'Actinidia29474' => 'ach', 'Ah.05g170960' => 'amhyb', 'Ah.06g194310' => 'amhyb', 'AL1G52210' => 'aly', 'AL2G26160' => 'aly', 'AL2G26170' => 'aly', 'AL7G14780' => 'aly', 'AL7G17050' => 'aly', 'Aqoxy6G00249' => 'aox', 'Aqoxy7G03887' => 'aox', 'Aqoxy7G03888' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05HDV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0B7PBW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6N07W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6ZS5B3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7DG5CM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8D8LNX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9H5ER3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A31U7C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A8F835' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BZ0RB3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGRI7M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW77H5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5YHGA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JXX0IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5XJ25' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SLIM8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z6ZXKG' => 'arhy', 'AT1G44170' => 'ath', 'AT4G34240' => 'ath', 'AT4G36250' => 'ath', 'ATR0584G039' => 'atr', 'ATR0661G534' => 'atr', 'Atru.chr13.1505' => 'acertr', 'Atru.chr3.2738' => 'acertr', 'Atru.chr3.750' => 'acertr', 'Atru.chr3.751' => 'acertr', 'Atru.chr3.752' => 'acertr', 'Atru.chr4.1094' => 'acertr', 'Atru.chr4.1099' => 'acertr', 'AUR62000112' => 'cqu', 'AUR62000539' => 'cqu', 'AUR62006888' => 'cqu', 'AUR62007642' => 'cqu', 'AUR62007659' => 'cqu', 'AUR62014317' => 'cqu', 'AUR62019290' => 'cqu', 'AUR62019291' => 'cqu', 'AUR62040468' => 'cqu', 'BcaB02g11444' => 'bca', 'BcaB03g12390' => 'bca', 'BcaB04g17591' => 'bca', 'BcaB07g33954' => 'bca', 'BcaC01g00469' => 'bca', 'BcaC05g27476' => 'bca', 'BcaC05g27647' => 'bca', 'BcaC07g37301' => 'bca', 'BcaC08g42843' => 'bca', 'BcaNung00745' => 'bca', 'BcaNung03013' => 'bca', 'BcaNung04787' => 'bca', 'BcaNung04984' => 'bca', 'BcaNung05907' => 'bca', 'BolC1t00259H' => 'bol', 'BolC1t00441H' => 'bol', 'BolC2t07643H' => 'bol', 'BolC3t20275H' => 'bol', 'BolC5t32167H' => 'bol', 'BolC5t32359H' => 'bol', 'BolC6t35191H' => 'bol', 'BolC6t35192H' => 'bol', 'BolC7t46584H' => 'bol', 'BolC8t47576H' => 'bol', 'BraA01t00236Z' => 'bra', 'BraA01t00408Z' => 'bra', 'BraA03t15481Z' => 'bra', 'BraA05t21083Z' => 'bra', 'BraA08t32648Z' => 'bra', 'BraA08t34162Z' => 'bra', 'BraA08t34172Z' => 'bra', 'BraSC36t46044Z' => 'bra', 'BraSC36t46045Z' => 'bra', 'C01p02690' => 'bna', 'C01p04560' => 'bna', 'C03p80210' => 'bna', 'C05p34390' => 'bna', 'C05p36350' => 'bna', 'C06p00580' => 'bna', 'C06p00590' => 'bna', 'C07p61610' => 'bna', 'C08p07350' => 'bna', 'C09p68180' => 'bna', 'CAN.G358.13' => 'can', 'CAN.G643.15' => 'can', 'CANSAT01G0775' => 'cansat', 'CANSAT01G1384' => 'cansat', 'CANSAT25G3557' => 'cansat', 'CANSAT54G2792' => 'cansat', 'CANSAT78G1942' => 'cansat', 'CARHR035840' => 'chi', 'CARHR108600' => 'chi', 'CARHR242550' => 'chi', 'CARHR244650' => 'chi', 'Carub.0001s3509' => 'cru', 'Carub.0007s0399' => 'cru', 'Carub.0007s0613' => 'cru', 'Ca_01296_v3' => 'car', 'Ca_12634_v3' => 'car', 'Ca_16566_v3' => 'car', 'Ca_16567_v3' => 'car', 'Ca_17615_v3' => 'car', 'Ca_20569_v3' => 'car', 'Ca_22352_v3' => 'car', 'Ca_27547_v3' => 'car', 'CBR_g48910' => 'cbr', 'CBR_g48912' => 'cbr', 'Cc07_g10290' => 'ccan', 'CDE07G0906' => 'cde', 'CDE07G1377' => 'cde', 'Cfa002187' => 'cfa', 'Cfa006929' => 'cfa', 'Cfa009763' => 'cfa', 'Cfa018575' => 'cfa', 'Cfa018576' => 'cfa', 'Cfa025627' => 'cfa', 'Ciclev10000776m.g' => 'ccl', 'Ciclev10000949m.g' => 'ccl', 'Ciclev10025492m.g' => 'ccl', 'CiPaw.03G116700' => 'cil', 'CiPaw.04G077900' => 'cil', 'CiPaw.04G078000' => 'cil', 'CiPaw.08G136200' => 'cil', 'CiPaw.13G161700' => 'cil', 'CiPaw.14G119500' => 'cil', 'CiPaw.15G087400' => 'cil', 'ClCG02G023300' => 'cla', 'ClCG07G008940' => 'cla', 'ClCG11G015830' => 'cla', 'COL.COLO4_12105' => 'col', 'COL.COLO4_21980' => 'col', 'COL.COLO4_24721' => 'col', 'COL.COLO4_24894' => 'col', 'Cpa.g.sc6.201' => 'cpa', 'Cpa.g.sc64.104' => 'cpa', 'Cpa.g.sc84.64' => 'cpa', 'CsaV3_4G005260' => 'csa', 'CsaV3_4G024200' => 'csa', 'CsaV3_4G028150' => 'csa', 'CSS0016687' => 'camsi', 'CSS0023964' => 'camsi', 'CSS0034582' => 'camsi', 'CSS0040302' => 'camsi', 'CSS0040892' => 'camsi', 'CSS0049086' => 'camsi', 'DCAR_003558' => 'dca', 'DCAR_009596' => 'dca', 'DCAR_017329' => 'dca', 'DCAR_024255' => 'dca', 'DCAR_028207' => 'dca', 'DCAR_031544' => 'dca', 'Dinv08207' => 'din', 'Dinv14635' => 'din', 'Dinv22184' => 'din', 'Dinv30335' => 'din', 'Dinv33590' => 'din', 'Dinv40045' => 'din', 'Duzib041G0716' => 'dzi', 'Duzib116G0913' => 'dzi', 'Duzib150G0096' => 'dzi', 'Duzib187G1604' => 'dzi', 'Duzib264G0720' => 'dzi', 'ECA232G0818' => 'eca', 'ECA233G0991' => 'eca', 'ECA238G1148' => 'eca', 'ECA246G2203' => 'eca', 'EL10Ac1g01037' => 'bvu', 'EL10Ac4g09676' => 'bvu', 'EL10Ac4g10263' => 'bvu', 'EL10Ac4g10279' => 'bvu', 'EL10As8g23865' => 'bvu', 'Eucgr.B03680' => 'egr', 'Eucgr.B03682' => 'egr', 'Eucgr.B03683' => 'egr', 'Eucgr.F03800' => 'egr', 'Eucgr.H05081' => 'egr', 'Eucgr.I02377' => 'egr', 'Eucgr.J00772' => 'egr', 'Eucgr.J00773' => 'egr', 'Eucgr.J00776' => 'egr', 'FAN15G1963' => 'fan', 'FAN15G3140' => 'fan', 'FAN17G0579' => 'fan', 'FAN17G1165' => 'fan', 'FAN19G2249' => 'fan', 'FAN19G2581' => 'fan', 'FAN20G3201' => 'fan', 'FAN22G1072' => 'fan', 'FAN23G0192' => 'fan', 'FAN23G2000' => 'fan', 'FAN24G1466' => 'fan', 'FAN26G1178' => 'fan', 'FAN26G1289' => 'fan', 'FAN26G1820' => 'fan', 'FAN26G2678' => 'fan', 'FAN28G1111' => 'fan', 'FAN28G2717' => 'fan', 'FvH4_1g12280' => 'fve', 'FvH4_1g25230' => 'fve', 'FvH4_2g27350' => 'fve', 'Glyma.02G051500' => 'gma', 'Glyma.04G248500' => 'gma', 'Glyma.06G114300' => 'gma', 'Glyma.08G002700' => 'gma', 'Glyma.11G133300' => 'gma', 'Glyma.12G057400' => 'gma', 'Glyma.13G030400' => 'gma', 'Glyma.13G340000' => 'gma', 'Glyma.14G152100' => 'gma', 'Glyma.15G034400' => 'gma', 'Glyma.16G131700' => 'gma', 'Gohir.A02G072700' => 'ghi', 'Gohir.A02G168800' => 'ghi', 'Gohir.A05G069000' => 'ghi', 'Gohir.A05G236301' => 'ghi', 'Gohir.A05G382100' => 'ghi', 'Gohir.A06G045700' => 'ghi', 'Gohir.D02G079800' => 'ghi', 'Gohir.D03G011200' => 'ghi', 'Gohir.D04G033100' => 'ghi', 'Gohir.D05G071900' => 'ghi', 'Gohir.D05G238500' => 'ghi', 'Gohir.D06G046200' => 'ghi', 'Gorai.003G011600' => 'gra', 'Gorai.005G089100' => 'gra', 'Gorai.009G072900' => 'gra', 'Gorai.009G247000' => 'gra', 'Gorai.010G051500' => 'gra', 'Gorai.012G037500' => 'gra', 'GSVIVG01008845001' => 'vvi', 'GSVIVG01018842001' => 'vvi', 'GSVIVG01022356001' => 'vvi', 'GSVIVG01025276001' => 'vvi', 'HanXRQChr02g0056171' => 'han', 'HanXRQChr02g0056341' => 'han', 'HanXRQChr05g0148801' => 'han', 'HanXRQChr07g0195521' => 'han', 'HanXRQChr07g0197491' => 'han', 'HanXRQChr11g0325671' => 'han', 'Haze_03820' => 'cav', 'Haze_17505' => 'cav', 'Haze_23127' => 'cav', 'Haze_25355' => 'cav', 'Haze_26987' => 'cav', 'Haze_27023' => 'cav', 'Haze_27131' => 'cav', 'Hma1.2p1_0056F.1_g031790' => 'hma', 'Hma1.2p1_0063F.1_g034490' => 'hma', 'Hma1.2p1_0129F.1_g060370' => 'hma', 'Hma1.2p1_1315F.1_g275140' => 'hma', 'HPP92_009277' => 'vpl', 'HPP92_025611' => 'vpl', 'Hund07219' => 'sun', 'Hund07517' => 'sun', 'Hund14021' => 'sun', 'Hund17305' => 'sun', 'Hund26797' => 'sun', 'Lalb_Chr03g0026311' => 'lal', 'Lalb_Chr04g0253481' => 'lal', 'Lalb_Chr04g0253501' => 'lal', 'Lalb_Chr04g0253511' => 'lal', 'Lalb_Chr04g0253521' => 'lal', 'Lalb_Chr05g0229931' => 'lal', 'Lalb_Chr07g0184221' => 'lal', 'Lalb_Chr10g0101551' => 'lal', 'Lalb_Chr11g0065961' => 'lal', 'Lalb_Chr11g0065971' => 'lal', 'Lalb_Chr11g0065981' => 'lal', 'Lalb_Chr11g0065991' => 'lal', 'Lalb_Chr14g0372121' => 'lal', 'Lj1A960T73' => 'lonja', 'Lj1g0003863' => 'lja', 'Lj1g0013281' => 'lja', 'Lj1g0015062' => 'lja', 'Lj2A631G14' => 'lonja', 'Lj3g0002549' => 'lja', 'Lj3g0011619' => 'lja', 'Lj3g0012604' => 'lja', 'Lj3g0014133' => 'lja', 'Lj4C212T7' => 'lonja', 'Lj4C632G4' => 'lonja', 'Lj4g0010080' => 'lja', 'Lj4g0021788' => 'lja', 'Lj6A312T39' => 'lonja', 'Lj6C312T4' => 'lonja', 'Lj7A343G54' => 'lonja', 'Lsat_1_v5_gn_2_97681' => 'lsa', 'Lsat_1_v5_gn_4_151120' => 'lsa', 'Lsat_1_v5_gn_6_47421' => 'lsa', 'Lsat_1_v5_gn_6_47461' => 'lsa', 'Lsat_1_v5_gn_6_97140' => 'lsa', 'Manes.02G100300' => 'mes', 'Manes.02G165200' => 'mes', 'Manes.06G165200' => 'mes', 'Manes.14G002200' => 'mes', 'Manes.18G078950' => 'mes', 'Mapoly0030s0099' => 'mpo', 'MBI01_g46757_MAGBIO' => 'mbi', 'MBI01_g47790_MAGBIO' => 'mbi', 'MBI03_g28526_MAGBIO' => 'mbi', 'MBI13_g05936_MAGBIO' => 'mbi', 'MBI19_g24059_MAGBIO' => 'mbi', 'MCO01G241' => 'mco', 'MD00G1029100' => 'mdo', 'MD00G1029200' => 'mdo', 'MD02G1136600' => 'mdo', 'MD15G1136900' => 'mdo', 'MD15G1137200' => 'mdo', 'MD15G1250400' => 'mdo', 'MD15G1345700' => 'mdo', 'Medtr1222s0010' => 'mtr', 'Medtr1314s0010' => 'mtr', 'Medtr1g029840' => 'mtr', 'Medtr2g097950' => 'mtr', 'Medtr3g061360' => 'mtr', 'Medtr3g088150' => 'mtr', 'Medtr3g094885' => 'mtr', 'Medtr4g020710' => 'mtr', 'Medtr4g065040' => 'mtr', 'Medtr8g076480' => 'mtr', 'Medtr8g094600' => 'mtr', 'MELO3C010493.2' => 'cme', 'MELO3C010494.2' => 'cme', 'MELO3C014601.2' => 'cme', 'MELO3C017542.2' => 'cme', 'Migut.C01106' => 'egut', 'Migut.C01117' => 'egut', 'Migut.D00597' => 'egut', 'Migut.H02490' => 'egut', 'Migut.K01360' => 'egut', 'Migut.N03273' => 'egut', 'MSTRG.1432' => 'ama', 'MSTRG.18424' => 'ama', 'MSTRG.21380' => 'ama', 'MSTRG.23275' => 'ama', 'Nitab4.5_0000023g0260' => 'nta', 'Nitab4.5_0000322g0120' => 'nta', 'Nitab4.5_0002266g0070' => 'nta', 'Nitab4.5_0003719g0020' => 'nta', 'Nitab4.5_0005652g0010' => 'nta', 'Nitab4.5_0008445g0010' => 'nta', 'Nn1g08868' => 'nnu', 'Nn5g28354' => 'nnu', 'Nn5g29178' => 'nnu', 'Nn6g32202' => 'nnu', 'Oeu024033.1' => 'oeu', 'Oeu025865.1' => 'oeu', 'Oeu028556.1' => 'oeu', 'Oeu028557.1' => 'oeu', 'Oeu047183.1' => 'oeu', 'Oeu059450.2' => 'oeu', 'Oeu063319.3' => 'oeu', 'Os02g0646500' => 'osa', 'Os02g0647900' => 'osa', 'Os04g0540600' => 'osa', 'Os11g0186200' => 'osa', 'Os12g0177900' => 'osa', 'Os12g0178000' => 'osa', 'Peaxi162Scf00051g01311' => 'pax', 'Peaxi162Scf00083g00191' => 'pax', 'Peaxi162Scf00083g01919' => 'pax', 'Peaxi162Scf00862g00111' => 'pax', 'Peaxi162Scf01274g00013' => 'pax', 'PGR042G1529' => 'pgr', 'PGR102G0059' => 'pgr', 'PGR102G1070' => 'pgr', 'PGR119G0455' => 'pgr', 'PGR119G0655' => 'pgr', 'PGSC0003DMG400003619' => 'stu', 'PGSC0003DMG400017568' => 'stu', 'PGSC0003DMG400019991' => 'stu', 'Phvul.001G072600' => 'pvu', 'Phvul.002G275200' => 'pvu', 'Phvul.003G258500' => 'pvu', 'Phvul.009G126400' => 'pvu', 'Phvul.011G059400' => 'pvu', 'Phvul.L009143' => 'pvu', 'Potri.001G259100' => 'ptr', 'Potri.001G412900' => 'ptr', 'Potri.002G081800' => 'ptr', 'Potri.005G069800' => 'ptr', 'Potri.005G179300' => 'ptr', 'Potri.007G017100' => 'ptr', 'Pp3c15_2700' => 'ppa', 'Pp3c17_4180' => 'ppa', 'Pp3c19_11220' => 'ppa', 'Pp3c22_15660' => 'ppa', 'Pp3c9_2340' => 'ppa', 'PRCOL_00000424' => 'pco', 'Prupe.1G493800' => 'ppe', 'Prupe.4G279800' => 'ppe', 'Prupe.7G163900' => 'ppe', 'Psat0ss26165g0160' => 'psa', 'Psat0ss3069g0120' => 'psa', 'Psat0ss3069g0160' => 'psa', 'Psat1g051080' => 'psa', 'Psat3g082160' => 'psa', 'Psat4g097080' => 'psa', 'Psat5g086480' => 'psa', 'Psat5g286520' => 'psa', 'Psat6g041560' => 'psa', 'Psat6g041600' => 'psa', 'Psat7g043800' => 'psa', 'Psat7g212880' => 'psa', 'Psat7g240320' => 'psa', 'PSO170G3879' => 'pso', 'PSO339G0196' => 'pso', 'PSO339G0834' => 'pso', 'PSO384G4388' => 'pso', 'PSO528G0262' => 'pso', 'PSO675G8420' => 'pso', 'QL01p004811' => 'qlo', 'QL01p004831' => 'qlo', 'QL01p004951' => 'qlo', 'QL01p004957' => 'qlo', 'QL06p034537' => 'qlo', 'QL09p033984' => 'qlo', 'QL10p040492' => 'qlo', 'RcHm_v2.0_Chr2g0100081' => 'rch', 'RcHm_v2.0_Chr2g0100111' => 'rch', 'RcHm_v2.0_Chr2g0123141' => 'rch', 'RcHm_v2.0_Chr4g0425691' => 'rch', 'RcHm_v2.0_Chr6g0296171' => 'rch', 'RcHm_v2.0_Chr6g0296181' => 'rch', 'RcHm_v2.0_Chr6g0296191' => 'rch', 'Rhsim08G0036600' => 'rsi', 'Rhsim10G0128400' => 'rsi', 'Rhsim10G0128500' => 'rsi', 'Rhsim11G0067800' => 'rsi', 'Rhsim11G0067900' => 'rsi', 'Sabra02G0064100' => 'sbr', 'Sabra05G0056800' => 'sbr', 'Sabra05G0135700' => 'sbr', 'Sabra07G0014600' => 'sbr', 'Sabra16G0158700' => 'sbr', 'Sabra16G0274000' => 'sbr', 'Sabra16G0274500' => 'sbr', 'Sabra16G0274800' => 'sbr', 'Sabra16G0278600' => 'sbr', 'SalBow2G0380' => 'sbo', 'SalBow7G4860' => 'sbo', 'SalBow8G4942' => 'sbo', 'Sc02g0004800' => 'sci', 'Sc03g0003360' => 'sci', 'Sc06g0004570' => 'sci', 'Sc06g0005360' => 'sci', 'Sed0002719' => 'sed', 'Sed0008329' => 'sed', 'Sed0013233' => 'sed', 'Sed0014868' => 'sed', 'Sed0016349' => 'sed', 'SEGI_08670' => 'sgi', 'SEGI_10120' => 'sgi', 'SEGI_11950' => 'sgi', 'SEGI_29723' => 'sgi', 'SEGI_30959' => 'sgi', 'SGA_v2.0_scaffold247G44875' => 'sas', 'SGA_v2.0_scaffold280G46848' => 'sas', 'SGA_v2.0_scaffold28G11989' => 'sas', 'SGA_v2.0_scaffold52G18955' => 'sas', 'SHI20718' => 'shi', 'SMO167G0019' => 'smo', 'SMO347G0141' => 'smo', 'SMO347G0524' => 'smo', 'Solyc01g011510.4' => 'sly', 'Solyc01g012700.4' => 'sly', 'Solyc01g012750.3' => 'sly', 'Solyc01g012760.1' => 'sly', 'Solyc01g013883.1' => 'sly', 'Solyc01g013890.3' => 'sly', 'Solyc02g084640.4' => 'sly', 'Solyc06g060250.3' => 'sly', 'Sopen01g007640' => 'spe', 'Sopen02g029310' => 'spe', 'Sopen06g020370' => 'spe', 'Sp1g33460' => 'spa', 'Sp7g32020' => 'spa', 'Sp7g33990' => 'spa', 'TAR376G0164' => 'tar', 'TAR381G0485' => 'tar', 'TAR628G0331' => 'tar', 'TAR628G1070' => 'tar', 'THA.LOC104806831' => 'tha', 'THA.LOC104811164' => 'tha', 'THA.LOC104819135' => 'tha', 'THA.LOC104824647' => 'tha', 'Thecc.01G024700' => 'tca', 'Thecc.01G140800' => 'tca', 'Thecc.08G128100' => 'tca', 'Thecc.09G232300' => 'tca', 'Thhalv10011438m.g' => 'esa', 'Thhalv10022980m.g' => 'esa', 'Thhalv10024844m.g' => 'esa', 'Thhalv10025045m.g' => 'esa', 'TPR.G20908' => 'tpr', 'TPR.G21054' => 'tpr', 'TPR.G21065' => 'tpr', 'TPR.G25792' => 'tpr', 'TPR.G33394' => 'tpr', 'TPR.G35027' => 'tpr', 'TPR.G37436' => 'tpr', 'TPR.G6843' => 'tpr', 'TPR.G746' => 'tpr', 'TWI34G0055' => 'twi', 'TWI60G0032' => 'twi', 'TWI60G0206' => 'twi', 'TWI73G0453' => 'twi', 'TWI79G0524' => 'twi', 'unitig_21.g20186' => 'ugi', 'unitig_62.g23877' => 'ugi', 'unitig_744.g24562' => 'ugi', 'unitig_899.g14630' => 'ugi', 'unitig_899.g14988' => 'ugi', 'vmacro00843' => 'vma', 'vmacro00844' => 'vma', 'vmacro04207' => 'vma', 'vmacro04208' => 'vma', 'vmacro12766' => 'vma', 'vmacro22103' => 'vma', 'VMungo0251G0204' => 'vmu', 'VMungo0251G2647' => 'vmu', 'VMungo0647G2132' => 'vmu', 'VMungo1080G0139' => 'vmu', 'VMungo1127G0921' => 'vmu', 'VMungo1309G2427' => 'vmu', 'Zm00001eb091200' => 'zma', 'Zm00001eb201330' => 'zma', 'Zm00001eb248870' => 'zma', 'Zm00001eb408260' => 'zma', 'Zm00001eb427610' => 'zma' ) $gf_id = 'HOM05D001094' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001094' ) $data_identifier = 'HOM05D001094' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 3, 'atr' => (int) 2, 'acertr' => (int) 7, 'cqu' => (int) 9, 'bca' => (int) 14, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 2, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 8, 'cbr' => (int) 2, 'ccan' => (int) 1, 'cde' => (int) 2, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 9, 'fan' => (int) 17, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 5, 'lal' => (int) 13, 'lonja' => (int) 7, 'lja' => (int) 9, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 11, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 6, 'nnu' => (int) 4, 'oeu' => (int) 7, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 5, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 13, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 5, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 3, 'spa' => (int) 3, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb427610' $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